메뉴 건너뛰기




Volumn 52, Issue 22, 2013, Pages 3888-3898

Human UDP-α-D-xylose synthase forms a catalytically important tetramer that has not been observed in crystal structures

Author keywords

[No Author keywords available]

Indexed keywords

DIMERS; ENZYMES; REACTION INTERMEDIATES; SIMULATED ANNEALING;

EID: 84878629479     PISSN: 00062960     EISSN: 15204995     Source Type: Journal    
DOI: 10.1021/bi400294e     Document Type: Article
Times cited : (7)

References (37)
  • 1
    • 0035930615 scopus 로고    scopus 로고
    • Biosynthesis of the linkage region of glycosaminoglycans: Cloning and activity of galactosyltransferase II, the sixth member of the beta 1,3-galactosyltransferase family (beta 3GalT6)
    • Bai, X., Zhou, D., Brown, J. R., Crawford, B. E., Hennet, T., and Esko, J. D. (2001) Biosynthesis of the linkage region of glycosaminoglycans: cloning and activity of galactosyltransferase II, the sixth member of the beta 1,3-galactosyltransferase family (beta 3GalT6) J. Biol. Chem. 276, 48189-48195
    • (2001) J. Biol. Chem. , vol.276 , pp. 48189-48195
    • Bai, X.1    Zhou, D.2    Brown, J.R.3    Crawford, B.E.4    Hennet, T.5    Esko, J.D.6
  • 2
    • 0036818369 scopus 로고    scopus 로고
    • Biosynthesis of chondroitin/dermatan sulfate
    • Silbert, J. E. and Sugumaran, G. (2002) Biosynthesis of chondroitin/dermatan sulfate IUBMB Life 54, 177-186
    • (2002) IUBMB Life , vol.54 , pp. 177-186
    • Silbert, J.E.1    Sugumaran, G.2
  • 3
    • 0036818793 scopus 로고    scopus 로고
    • Heparin and heparan sulfate biosynthesis
    • Sugahara, K. and Kitagawa, H. (2002) Heparin and heparan sulfate biosynthesis IUBMB Life 54, 163-175
    • (2002) IUBMB Life , vol.54 , pp. 163-175
    • Sugahara, K.1    Kitagawa, H.2
  • 4
    • 84855515852 scopus 로고    scopus 로고
    • Dystroglycan function requires xylosyl- and glucuronyltransferase activities of LARGE
    • Inamori, K., Yoshida-Moriguchi, T., Hara, Y., Anderson, M. E., Yu, L., and Campbell, K. P. (2012) Dystroglycan function requires xylosyl- and glucuronyltransferase activities of LARGE Science 335, 93-96
    • (2012) Science , vol.335 , pp. 93-96
    • Inamori, K.1    Yoshida-Moriguchi, T.2    Hara, Y.3    Anderson, M.E.4    Yu, L.5    Campbell, K.P.6
  • 6
    • 58149133711 scopus 로고    scopus 로고
    • Medium- and short-chain dehydrogenase/reductase gene and protein families: The SDR superfamily: Functional and structural diversity within a family of metabolic and regulatory enzymes
    • Kavanagh, K. L., Jornvall, H., Persson, B., and Oppermann, U. (2008) Medium- and short-chain dehydrogenase/reductase gene and protein families: the SDR superfamily: functional and structural diversity within a family of metabolic and regulatory enzymes Cell. Mol. Life Sci. 65, 3895-3906
    • (2008) Cell. Mol. Life Sci. , vol.65 , pp. 3895-3906
    • Kavanagh, K.L.1    Jornvall, H.2    Persson, B.3    Oppermann, U.4
  • 8
    • 84866118842 scopus 로고    scopus 로고
    • Structure and mechanism of human UDP-xylose synthase: Evidence for a promoting role of sugar ring distortion in a three-step catalytic conversion of UDP-glucuronic acid
    • Eixelsberger, T., Sykora, S., Egger, S., Brunsteiner, M., Kavanagh, K. L., Oppermann, U., Brecker, L., and Nidetzky, B. (2012) Structure and mechanism of human UDP-xylose synthase: evidence for a promoting role of sugar ring distortion in a three-step catalytic conversion of UDP-glucuronic acid J. Biol. Chem. 287, 31349-31358
    • (2012) J. Biol. Chem. , vol.287 , pp. 31349-31358
    • Eixelsberger, T.1    Sykora, S.2    Egger, S.3    Brunsteiner, M.4    Kavanagh, K.L.5    Oppermann, U.6    Brecker, L.7    Nidetzky, B.8
  • 9
    • 84868574639 scopus 로고    scopus 로고
    • Human UDP-alpha-D-xylose synthase and E. coli ArnA conserve a conformational shunt that controls whether xylose or 4-keto-xylose is produced
    • Polizzi, S. J., Walsh, R. M., Jr., Peeples, W. B., Lim, J. M., Wells, L., and Wood, Z. A. (2012) Human UDP-alpha-D-xylose synthase and E. coli ArnA conserve a conformational shunt that controls whether xylose or 4-keto-xylose is produced Biochemistry 51, 8844-8855
    • (2012) Biochemistry , vol.51 , pp. 8844-8855
    • Polizzi, S.J.1    Walsh Jr., R.M.2    Peeples, W.B.3    Lim, J.M.4    Wells, L.5    Wood, Z.A.6
  • 11
    • 0037053343 scopus 로고    scopus 로고
    • UDP-glucuronate decarboxylase, a key enzyme in proteoglycan synthesis: Cloning, characterization, and localization
    • Moriarity, J. L., Hurt, K. J., Resnick, A. C., Storm, P. B., Laroy, W., Schnaar, R. L., and Snyder, S. H. (2002) UDP-glucuronate decarboxylase, a key enzyme in proteoglycan synthesis: cloning, characterization, and localization J. Biol. Chem. 277, 16968-16975
    • (2002) J. Biol. Chem. , vol.277 , pp. 16968-16975
    • Moriarity, J.L.1    Hurt, K.J.2    Resnick, A.C.3    Storm, P.B.4    Laroy, W.5    Schnaar, R.L.6    Snyder, S.H.7
  • 12
    • 59049092970 scopus 로고    scopus 로고
    • Functional UDP-xylose transport across the endoplasmic reticulum/Golgi membrane in a Chinese hamster ovary cell mutant defective in UDP-xylose Synthase
    • Bakker, H., Oka, T., Ashikov, A., Yadav, A., Berger, M., Rana, N. A., Bai, X., Jigami, Y., Haltiwanger, R. S., Esko, J. D., and Gerardy-Schahn, R. (2009) Functional UDP-xylose transport across the endoplasmic reticulum/Golgi membrane in a Chinese hamster ovary cell mutant defective in UDP-xylose Synthase J. Biol. Chem. 284, 2576-2583
    • (2009) J. Biol. Chem. , vol.284 , pp. 2576-2583
    • Bakker, H.1    Oka, T.2    Ashikov, A.3    Yadav, A.4    Berger, M.5    Rana, N.A.6    Bai, X.7    Jigami, Y.8    Haltiwanger, R.S.9    Esko, J.D.10    Gerardy-Schahn, R.11
  • 13
    • 0037207137 scopus 로고    scopus 로고
    • Structure of the MUR1 GDP-mannose 4,6-dehydratase from Arabidopsis thaliana: Implications for ligand binding and specificity
    • Mulichak, A. M., Bonin, C. P., Reiter, W. D., and Garavito, R. M. (2002) Structure of the MUR1 GDP-mannose 4,6-dehydratase from Arabidopsis thaliana: implications for ligand binding and specificity Biochemistry 41, 15578-15589
    • (2002) Biochemistry , vol.41 , pp. 15578-15589
    • Mulichak, A.M.1    Bonin, C.P.2    Reiter, W.D.3    Garavito, R.M.4
  • 14
    • 1542429069 scopus 로고    scopus 로고
    • Crystal structure at 1.8 Å resolution of CDP-D-glucose 4,6-dehydratase from Yersinia pseudotuberculosis
    • Vogan, E. M., Bellamacina, C., He, X., Liu, H. W., Ringe, D., and Petsko, G. A. (2004) Crystal structure at 1.8 Å resolution of CDP-D-glucose 4,6-dehydratase from Yersinia pseudotuberculosis Biochemistry 43, 3057-3067
    • (2004) Biochemistry , vol.43 , pp. 3057-3067
    • Vogan, E.M.1    Bellamacina, C.2    He, X.3    Liu, H.W.4    Ringe, D.5    Petsko, G.A.6
  • 15
    • 0038419490 scopus 로고    scopus 로고
    • High resolution X-ray structure of tyvelose epimerase from Salmonella typhi
    • Koropatkin, N. M., Liu, H. W., and Holden, H. M. (2003) High resolution X-ray structure of tyvelose epimerase from Salmonella typhi J. Biol. Chem. 278, 20874-20881
    • (2003) J. Biol. Chem. , vol.278 , pp. 20874-20881
    • Koropatkin, N.M.1    Liu, H.W.2    Holden, H.M.3
  • 17
    • 0002498995 scopus 로고
    • Computer-aided interpretation of analytical sedimentation data for proteins
    • (Harding, S. E. Rowe, A. J. and Horton, J. C. Eds.), The Royal Society of Chemistry, Cambridge
    • Laue, T. M., Shah, B. D., Ridgeway, T. M., and Pelletier, S. L. (1992). Computer-aided interpretation of analytical sedimentation data for proteins. In Analytical Ultracentrifugation in Biochemistry and Polymer Science (Harding, S. E., Rowe, A. J., and Horton, J. C., Eds.), pp 90-125, The Royal Society of Chemistry, Cambridge.
    • (1992) Analytical Ultracentrifugation in Biochemistry and Polymer Science , pp. 90-125
    • Laue, T.M.1    Shah, B.D.2    Ridgeway, T.M.3    Pelletier, S.L.4
  • 18
    • 33744809773 scopus 로고    scopus 로고
    • Macromolecular size-and-shape distributions by sedimentation velocity analytical ultracentrifugation
    • Brown, P. H. and Schuck, P. (2006) Macromolecular size-and-shape distributions by sedimentation velocity analytical ultracentrifugation Biophys. J. 90, 4651-4661
    • (2006) Biophys. J. , vol.90 , pp. 4651-4661
    • Brown, P.H.1    Schuck, P.2
  • 19
    • 20444380585 scopus 로고    scopus 로고
    • Sedimentation velocity analysis of heterogeneous protein-protein interactions: Lamm equation modeling and sedimentation coefficient distributions c(s)
    • Dam, J., Velikovsky, C. A., Mariuzza, R. A., Urbanke, C., and Schuck, P. (2005) Sedimentation velocity analysis of heterogeneous protein-protein interactions: Lamm equation modeling and sedimentation coefficient distributions c(s) Biophys. J. 89, 619-634
    • (2005) Biophys. J. , vol.89 , pp. 619-634
    • Dam, J.1    Velikovsky, C.A.2    Mariuzza, R.A.3    Urbanke, C.4    Schuck, P.5
  • 20
    • 0001229341 scopus 로고    scopus 로고
    • Calculation of hydrodynamic properties of globular proteins from their atomic-level structure
    • Garcia De La Torre, J., Huertas, M. L., and Carrasco, B. (2000) Calculation of hydrodynamic properties of globular proteins from their atomic-level structure Biophys. J. 78, 719-730
    • (2000) Biophys. J. , vol.78 , pp. 719-730
    • De La Torre, J.G.1    Huertas, M.L.2    Carrasco, B.3
  • 22
    • 34248359067 scopus 로고    scopus 로고
    • ATSAS 2.1 - Towards automated and web-supported small-angle scattering data analysis
    • Petoukhov, M. V., Konarev, P. V., Kikhney, A. G., and Svergun, D. I. (2007) ATSAS 2.1-towards automated and web-supported small-angle scattering data analysis J. Appl. Crystallogr. 40, 223-228
    • (2007) J. Appl. Crystallogr. , vol.40 , pp. 223-228
    • Petoukhov, M.V.1    Konarev, P.V.2    Kikhney, A.G.3    Svergun, D.I.4
  • 23
    • 12544256134 scopus 로고    scopus 로고
    • Calculation of standard atomic volumes for RNA and comparison with proteins: RNA is packed more tightly
    • Voss, N. R. and Gerstein, M. (2005) Calculation of standard atomic volumes for RNA and comparison with proteins: RNA is packed more tightly J. Mol. Biol. 346, 477-492
    • (2005) J. Mol. Biol. , vol.346 , pp. 477-492
    • Voss, N.R.1    Gerstein, M.2
  • 24
    • 75649147383 scopus 로고    scopus 로고
    • Determination of the molecular weight of proteins in solution from a single small-angle X-ray scattering measurement on a relative scale
    • Fischer, H., De Oliveira Neto, M., Napolitano, H. B., Polikarpov, I., and Craievich, A. F. (2010) Determination of the molecular weight of proteins in solution from a single small-angle X-ray scattering measurement on a relative scale J. Appl. Crystallogr. 43, 101-109
    • (2010) J. Appl. Crystallogr. , vol.43 , pp. 101-109
    • Fischer, H.1    De Oliveira Neto, M.2    Napolitano, H.B.3    Polikarpov, I.4    Craievich, A.F.5
  • 25
    • 23244455562 scopus 로고    scopus 로고
    • Global rigid body modeling of macromolecular complexes against small-angle scattering data
    • Petoukhov, M. V. and Svergun, D. I. (2005) Global rigid body modeling of macromolecular complexes against small-angle scattering data Biophys. J. 89, 1237-1250
    • (2005) Biophys. J. , vol.89 , pp. 1237-1250
    • Petoukhov, M.V.1    Svergun, D.I.2
  • 26
    • 0029185933 scopus 로고
    • CRYSOL - A Program to Evaluate X-ray Solution Scattering of Biological Macromolecules from Atomic Coordinates
    • Svergun, D., Barberato, C., and Koch, M. H. J. (1995) CRYSOL-a Program to Evaluate X-ray Solution Scattering of Biological Macromolecules from Atomic Coordinates J. Appl. Crystallogr. 28, 768-773
    • (1995) J. Appl. Crystallogr. , vol.28 , pp. 768-773
    • Svergun, D.1    Barberato, C.2    Koch, M.H.J.3
  • 27
    • 34548232365 scopus 로고    scopus 로고
    • Inference of macromolecular assemblies from crystalline state
    • Krissinel, E. and Henrick, K. (2007) Inference of macromolecular assemblies from crystalline state J. Mol. Biol. 372, 774-797
    • (2007) J. Mol. Biol. , vol.372 , pp. 774-797
    • Krissinel, E.1    Henrick, K.2
  • 28
    • 20444474170 scopus 로고    scopus 로고
    • A natural osmolyte trimethylamine N-oxide promotes assembly and bundling of the bacterial cell division protein, FtsZ and counteracts the denaturing effects of urea
    • Mukherjee, A., Santra, M. K., Beuria, T. K., and Panda, D. (2005) A natural osmolyte trimethylamine N-oxide promotes assembly and bundling of the bacterial cell division protein, FtsZ and counteracts the denaturing effects of urea FEBS J. 272, 2760-2772
    • (2005) FEBS J. , vol.272 , pp. 2760-2772
    • Mukherjee, A.1    Santra, M.K.2    Beuria, T.K.3    Panda, D.4
  • 29
    • 4544363334 scopus 로고    scopus 로고
    • Effect of molecular crowding on self-association of phosphorylase kinase and its interaction with phosphorylase b and glycogen
    • Chebotareva, N. A., Andreeva, I. E., Makeeva, V. F., Livanova, N. B., and Kurganov, B. I. (2004) Effect of molecular crowding on self-association of phosphorylase kinase and its interaction with phosphorylase b and glycogen J. Mol. Recognit.: JMR 17, 426-432
    • (2004) J. Mol. Recognit.: JMR , vol.17 , pp. 426-432
    • Chebotareva, N.A.1    Andreeva, I.E.2    Makeeva, V.F.3    Livanova, N.B.4    Kurganov, B.I.5
  • 30
    • 1642575362 scopus 로고    scopus 로고
    • Crystal structure of a tetrameric GDP-D-mannose 4,6-dehydratase from a bacterial GDP-D-rhamnose biosynthetic pathway
    • Webb, N. A., Mulichak, A. M., Lam, J. S., Rocchetta, H. L., and Garavito, R. M. (2004) Crystal structure of a tetrameric GDP-D-mannose 4,6-dehydratase from a bacterial GDP-D-rhamnose biosynthetic pathway Protein Sci. 13, 529-539
    • (2004) Protein Sci. , vol.13 , pp. 529-539
    • Webb, N.A.1    Mulichak, A.M.2    Lam, J.S.3    Rocchetta, H.L.4    Garavito, R.M.5
  • 31
    • 23844469542 scopus 로고    scopus 로고
    • Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi complexed with CDP-D-xylose
    • Koropatkin, N. M. and Holden, H. M. (2005) Structure of CDP-D-glucose 4,6-dehydratase from Salmonella typhi complexed with CDP-D-xylose Acta Crystallogr. Sect. D, Biol. Crystallogr. 61, 365-373
    • (2005) Acta Crystallogr. Sect. D, Biol. Crystallogr. , vol.61 , pp. 365-373
    • Koropatkin, N.M.1    Holden, H.M.2
  • 32
    • 0033969150 scopus 로고    scopus 로고
    • Implications of macromolecular crowding for protein assembly
    • Minton, A. P. (2000) Implications of macromolecular crowding for protein assembly Curr. Opin. Struct. Biol. 10, 34-39
    • (2000) Curr. Opin. Struct. Biol. , vol.10 , pp. 34-39
    • Minton, A.P.1
  • 33
    • 0035478585 scopus 로고    scopus 로고
    • Macromolecular crowding: Obvious but underappreciated
    • Ellis, R. J. (2001) Macromolecular crowding: obvious but underappreciated Trends Biochem. Sci. 26, 597-604
    • (2001) Trends Biochem. Sci. , vol.26 , pp. 597-604
    • Ellis, R.J.1
  • 34
    • 78449301146 scopus 로고    scopus 로고
    • The osmolyte trimethylamine N-oxide (TMAO) increases the proteolytic activity of botulinum neurotoxin light chains A, B, and E: Implications for enhancing analytical assay sensitivity
    • Nuss, J. E., Wanner, L. M., Tressler, L. E., and Bavari, S. (2010) The osmolyte trimethylamine N-oxide (TMAO) increases the proteolytic activity of botulinum neurotoxin light chains A, B, and E: implications for enhancing analytical assay sensitivity J. Biomol. Screening 15, 928-936
    • (2010) J. Biomol. Screening , vol.15 , pp. 928-936
    • Nuss, J.E.1    Wanner, L.M.2    Tressler, L.E.3    Bavari, S.4
  • 35
    • 79952421282 scopus 로고    scopus 로고
    • Effect of osmolytes on protein dynamics in the lactate dehydrogenase-catalyzed reaction
    • Zhadin, N. and Callender, R. (2011) Effect of osmolytes on protein dynamics in the lactate dehydrogenase-catalyzed reaction Biochemistry 50, 1582-1589
    • (2011) Biochemistry , vol.50 , pp. 1582-1589
    • Zhadin, N.1    Callender, R.2
  • 36
    • 0037195161 scopus 로고    scopus 로고
    • The SQV-1 UDP-glucuronic acid decarboxylase and the SQV-7 nucleotide-sugar transporter may act in the Golgi apparatus to affect Caenorhabditis elegans vulval morphogenesis and embryonic development
    • Hwang, H. Y. and Horvitz, H. R. (2002) The SQV-1 UDP-glucuronic acid decarboxylase and the SQV-7 nucleotide-sugar transporter may act in the Golgi apparatus to affect Caenorhabditis elegans vulval morphogenesis and embryonic development Proc. Natl. Acad. Sci. U. S. A. 99, 14218-14223
    • (2002) Proc. Natl. Acad. Sci. U. S. A. , vol.99 , pp. 14218-14223
    • Hwang, H.Y.1    Horvitz, H.R.2
  • 37
    • 0042855798 scopus 로고    scopus 로고
    • On the analysis of protein self-association by sedimentation velocity analytical ultracentrifugation
    • Schuck, P. (2003) On the analysis of protein self-association by sedimentation velocity analytical ultracentrifugation Anal. Biochem. 320, 104-124
    • (2003) Anal. Biochem. , vol.320 , pp. 104-124
    • Schuck, P.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.